RStudio¶
RStudio is an IDE specialized for the R programming language.
What is an IDE?
See the page on IDEs.
Using RStudio differs per UPPMAX cluster:
RStudio versions¶
Which versions of RStudio are available?
Use module spider Rstudio
to see all versions:
[sven@r210 sven]$ module spider Rstudio
----------------------------------------------------------------------------
RStudio:
----------------------------------------------------------------------------
Versions:
RStudio/1.0.136
RStudio/1.0.143
RStudio/1.0.153
RStudio/1.1.423
RStudio/1.1.463
RStudio/1.4.1106
RStudio/2022.02.0-443
RStudio/2022.02.3-492
RStudio/2022.07.1-554
RStudio/2023.06.0-421
RStudio/2023.06.2-561
RStudio/2023.12.1-402 (may not always work)
Some links between version and official documentation:
RStudio module | RStudio Builds documentation |
---|---|
RStudio/2023.06.2-561 |
here |
Troubleshooting¶
R encountered a fatal error¶
Full error message:
This is because the home folder is full.
Check this by using uquota.md.
How does that look like?
Your output will be similar to this:
[sven@rackham3 ~]$ uquota
Your project Your File Area Unit Usage Quota Limit Over Quota
--------------- ------------------- ------- -------- ----------- ----------
home /home/sven GiB 24.7 32
home /home/sven files 79180 300000
naiss2024-22-49 /proj/worldpeace GiB 5.1 128
naiss2024-22-49 /proj/worldpeace files 20276 100000
Candidates for files that are too big, that are hidden files:
.RData
.Renviron
.Rhistory
One can use ls -all
to see all files, including hidden files:
How does that look like?
Your output will be similar to this:
[sven@rackham2 ~]$ ls --all
. .gtkrc .nextflow.log.8
.. .ICEauthority .nextflow.log.9
.allinea .ipython .nv
.bash_history .java .oracle_jre_usage
.bash_logout .jupyter .pki
.bash_profile .kde private
.bashrc .keras .profile
.bashrc.save .lesshst .python_history
.beast lib .r
bin .lmod.d R
.cache .local .RData
.conda .login .Rhistory
.config .MathWorks .rstudio-desktop
.cshrc .matlab .ssh
.dbus .mozilla .subversion
DNABERT_2 my_little_turtle.py ticket_297538
.emacs .nextflow users
.esd_auth .nextflow.log .viminfo
.gitconfig .nextflow.log.1 .vscode-oss
.git-credential-cache .nextflow.log.2 .vscode-server
glob .nextflow.log.3 .wget-hsts
.gnupg .nextflow.log.4 .Xauthority
.gracetimefile .nextflow.log.5 .xfce4-session.verbose-log
.gradle .nextflow.log.6 .xfce4-session.verbose-log.last
.gstreamer-0.10 .nextflow.log.7 .zshrc
You can delete these hidden files, by:
For staff
Full report can be found at RT ticket 298623